The Pediatric AML Methylome Atlas#

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FileNotFoundError                         Traceback (most recent call last)
Cell In[1], line 7
      4 input_path = '../Data/Processed_Data/'
      5 output_path = '../Data/Processed_Data/'
----> 7 x_train = pd.read_pickle(PaCMAP_path+'embedding.pkl')
      8 x_test = pd.read_pickle(PaCMAP_path+'embedding_test.pkl')
     10 y = pd.read_csv(input_path+'y.csv', index_col=0)

File ~/projects/MethylScore/Code/.venv_py38/lib/python3.8/site-packages/pandas/io/pickle.py:179, in read_pickle(filepath_or_buffer, compression, storage_options)
    115 """
    116 Load pickled pandas object (or any object) from file.
    117 
   (...)
    176 4    4    9
    177 """
    178 excs_to_catch = (AttributeError, ImportError, ModuleNotFoundError, TypeError)
--> 179 with get_handle(
    180     filepath_or_buffer,
    181     "rb",
    182     compression=compression,
    183     is_text=False,
    184     storage_options=storage_options,
    185 ) as handles:
    186     # 1) try standard library Pickle
    187     # 2) try pickle_compat (older pandas version) to handle subclass changes
    188     # 3) try pickle_compat with latin-1 encoding upon a UnicodeDecodeError
    190     try:
    191         # TypeError for Cython complaints about object.__new__ vs Tick.__new__
    192         try:

File ~/projects/MethylScore/Code/.venv_py38/lib/python3.8/site-packages/pandas/io/common.py:868, in get_handle(path_or_buf, mode, encoding, compression, memory_map, is_text, errors, storage_options)
    859         handle = open(
    860             handle,
    861             ioargs.mode,
   (...)
    864             newline="",
    865         )
    866     else:
    867         # Binary mode
--> 868         handle = open(handle, ioargs.mode)
    869     handles.append(handle)
    871 # Convert BytesIO or file objects passed with an encoding

FileNotFoundError: [Errno 2] No such file or directory: '../Data/Processed_Data/PaCMAP_Results/embedding.pkl'

Interactive map of 1,142 pediatric AML patients based solely on their methylomes at diagnosis: